efast_run_Analysis: Runs the eFAST Analysis for the pre-generated summary file
In kalden/spartan: Simulation Parameter Analysis R Toolkit ApplicatioN: 'spartan'

Description Usage Arguments Value

Produces a file summarising the analysis; partitioning the variance between parameters and providing relevant statistics. These include, for each parameter of interest, first-order sensitivity index (Si), total-order sensitivity index (STi), complementary parameters sensitivity index (SCi), and relevant p-values and error bar data calculated using a two-sample t-test and standard error respectively. For a more detailed examination of this analysis, see the references in the R Journal paper. For ease of representation, the method also produces a graph showing this data for each simulation output measure. These graphs and summaries can be produced for multiple timepoints.

efast_run_Analysis(FILEPATH, MEASURES, PARAMETERS, NUMCURVES, NUMSAMPLES,
  OUTPUTMEASURES_TO_TTEST, TTEST_CONF_INT, GRAPH_FLAG, EFASTRESULTFILENAME,
  TIMEPOINTS = NULL, TIMEPOINTSCALE = NULL, GRAPHTIME = NULL,
  check_done = FALSE, output_types = c("pdf"),
  csv_file_curve_summary = TRUE, write_csv_file_out = TRUE,
  CURVE_SUMMARY = NULL)

`FILEPATH`	Directory where the simulation runs can be found, in folders or in CSV file format
`MEASURES`	Array containing the names of the output measures which are used to analyse the simulation
`PARAMETERS`	Array containing the names of the parameters of which parameter samples have been generated
`NUMCURVES`	The number of 'resamples' to perform (see eFAST documentation) - recommend using at least 3
`NUMSAMPLES`	The number of parameter subsets that were generated in the eFAST design
`OUTPUTMEASURES_TO_TTEST`	Which measures in the range should be tested to see if the result is statistically significant. To do all, and if there were 3 measures, this would be set to 1:3
`TTEST_CONF_INT`	The level of significance to use for the T-Test (e.g. 0.95)
`GRAPH_FLAG`	Whether graphs should be produced summarising the output - should be TRUE or FALSE
`EFASTRESULTFILENAME`	File name under which the full eFAST analysis should be stored. This will contain the partitioning of variance for each parameter.
`TIMEPOINTS`	mplemented so this method can be used when analysing multiple simulation timepoints. If only analysing one timepoint, this should be set to NULL. If not, this should be an array of timepoints, e.g. c(12,36,48,60)
`TIMEPOINTSCALE`	Sets the scale of the timepoints being analysed, e.g. "Hours"
`GRAPHTIME`	Value never needs stating, used internally to produce graphs when processing multiple timepoints
`check_done`	If using multiple timepoints, whether data entry has been checked
`output_types`	Files types of graph to produce (pdf,png,bmp etc)
`csv_file_curve_summary`	Whether curve summaries are provided in multiple CSV files (as in traditional spartan), or as an R object (as in spartanDB)
`write_csv_file_out`	Whether the analysis should output a CSV file (TRUE) or return an R object (FALSE)
`CURVE_SUMMARY`	If providing an R object (csv_file_curve_summary=FALSE), this is the R object containing those summaries